TarDB: A miRNA Target Database in Plants.


TarDB employs cross-species conservation filter, degradome and sRNA-seq data to identify high-confidence miRNA targets in plants.



miRNA ID

csi-miR399e-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GGGCAAUUCUCUAUUGGCAGU

miRBase

Precursor miRNA Sequence(5'-3')

CAAAUGAAUCAAGUGUUUAGAUGCAUUACUGGGCAAUUCUCUAUUGGCAGUUGGCUGCAGGGAGGAGCAACCUAGCUCACUGCCAAAGGAGAUUUGCCCGGCAAUUCAUCUGUGCAAUCAUCCUAAUAUUU

miRBase

Precursor miRNA Structure(5'-3') 

--CAAAUGAAUCAAG   U      C   A        U     A        U    GC   GAG 
               UGU UAGAUG AUU CUGGGCAA UCUCU UUGGCAGU GGCU  AGG   G
               ||| |||||| ||| |||||||| ||||| |||||||| ||||  |||   A
               ACG GUCUAC UAA GGCCCGUU AGAGG AACCGUCA UCGA  UCC   A
UUUAUAAUCCUACUA   U      U   C        U     A        C    --   AAC

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

aly-miR399e-5p      GGGCGAAUCCUCUAUUGGCAGG
csi-miR399e-5p      GGGC-AAUUCUCUAUUGGCAGU
stu-miR399g-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399h         GGGC-UACUCUCUAUUGGCAUG
stu-miR399f-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399e-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399d-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399c-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399b-5p      GGGC-UACUCUCUAUUGGCAUG
stu-miR399a-5p      GGGC-UACUCUCUAUUGGCAUG
aly-miR399b-5p      GGGC-GCCUCUCCAUUGGCAGG
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